Nothing Special   »   [go: up one dir, main page]

skip to main content
research-article

Dual states based reinforcement learning for fast MR scan and image reconstruction

Published: 01 February 2024 Publication History

Abstract

Incomplete phase encoding with few phases is an effective under-sampling manner of fast Magnetic Resonance (MR) scan. The key is how to choose important slice-specific phases. Reinforcement Learning (RL) is powerful for sequential decision-making and therefore is feasible for slice-specific phase selection. Existing RL-based methods employ time-consuming reconstruction-oriented Deep Neural Networks (DNN) to generate/transit states from which phase selection and reward computation are performed. The advantage is that the selected phases and the corresponding partial k-space data match the DNN for image reconstruction. The disadvantage lies in the impossibility of deciding/selecting a phase in as short as several milliseconds required in the timings of a typical pulse sequence. To simultaneously keep the matching advantage and avoid the inefficiency disadvantage, we propose a dual-state-based RL framework. A visible Parameter-Free (PF) state obtained by inverse Fast Fourier transform and a hidden DNN state obtained by applying a time-consuming reconstruction-oriented DNN on the visible state are called dual states. Visible states are used as input of phase decision networks and hidden states are used for computing reward to evaluate the decision networks. Because the time-consuming hidden states are merely involved in training process and only efficient visible states are computed in inference process, the proposed method is very efficient. Moreover, we demonstrate that incorporating the phase-indicator vector (containing sequentially selected phases) as an additional input to the transformer used for reconstructing from undersampled MR images can significantly improve image reconstruction accuracy. Experiments on fastMRI dataset demonstrate effectiveness and efficiency of the proposed method.

References

[1]
Westbrook Catherine, Talbot John, Protocol optimization, in: MRI in Practice, fifth ed., John Wiley & Sons, Hoboken, NJ, 2019, p. 237. Chapter 7.
[2]
Pruessmann Klaas P., Weiger Markus, Scheidegger Markus B., Boesiger Peter, SENSE: sensitivity encoding for fast MRI, Magn. Reson. Med. 42 (5) (1999) 952–962.
[3]
Zhu Bo, Liu Jeremiah Z., Cauley Stephen F., Rosen Bruce R., Rosen Matthew S., Image reconstruction by domain-transform manifold learning, Nature 555 (7697) (2018) 487–492.
[4]
Griswold Mark A., Jakob Peter M., Heidemann Robin M., Nittka Mathias, Jellus Vladimir, Wang Jianmin, Kiefer Berthold, Haase Axel, Generalized autocalibrating partially parallel acquisitions (GRAPPA), Magn. Reson. Med. 47 (6) (2002) 1202–1210.
[5]
Candes Emmanuel J., Tao Terence, Near-optimal signal recovery from random projections: Universal encoding strategies?, IEEE Trans. Inform. Theory 52 (12) (2006) 5406–5425.
[6]
Haldar Justin P., Hernando Diego, Liang Zhi-Pei, Compressed-sensing MRI with random encoding, IEEE Trans. Med. Imaging 30 (4) (2010) 893–903.
[7]
Ravishankar Saiprasad, Bresler Yoram, Adaptive sampling design for compressed sensing MRI, in: Annual International Conference of the IEEE Engineering in Medicine and Biology Society, IEEE, 2011, pp. 3751–3755.
[8]
Weiss Tomer, Vedula Sanketh, Senouf Ortal, Michailovich Oleg, Zibulevsky Michael, Bronstein Alex, Joint learning of cartesian under sampling andre construction for accelerated MRI, in: IEEE International Conference on Acoustics, Speech and Signal Processing, IEEE, 2020, pp. 8653–8657.
[9]
Bahadir Cagla D., Wang Alan Q., Dalca Adrian V., Sabuncu Mert R., Deep-learning-based optimization of the under-sampling pattern in MRI, IEEE Trans. Comput. Imaging 6 (2020) 1139–1152.
[10]
Levine Evan, Hargreaves Brian, On-the-fly adaptive k -space sampling for linear MRI reconstruction using moment-based spectral analysis, IEEE Trans. Med. Imaging 37 (2) (2018) 557–567.
[11]
Jin Kyong Hwan, Unser Michael, Yi Kwang Moo, Self-supervised deep active accelerated MRI, 2019, arXiv preprint arXiv:1901.04547.
[12]
Bakker Tim, van Hoof Herke, Welling Max, Experimental design for MRI by greedy policy search, Adv. Neural Inf. Process. Syst. 33 (2020) 18954–18966.
[13]
Pineda Luis, Basu Sumana, Romero Adriana, Calandra Roberto, Drozdzal Michal, Active MR k-space sampling with reinforcement learning, in: Medical Image Computing and Computer Assisted Intervention, Springer, 2020, pp. 23–33.
[14]
Akçakaya Mehmet, Moeller Steen, Weingärtner Sebastian, Uğurbil Kâmil, Scan-specific robust artificial-neural-networks for k-space interpolation (RAKI) reconstruction: Database-free deep learning for fast imaging, Magn. Reson. Med. 81 (1) (2018) 439–453.
[15]
Chauffert Nicolas, Ciuciu Philippe, Weiss Pierre, Variable density compressed sensing in MRI. Theoretical vs heuristic sampling strategies, in: IEEE International Symposium on Biomedical Imaging, IEEE, 2013, pp. 298–301.
[16]
Chauffert Nicolas, Ciuciu Philippe, Kahn Jonas, Weiss Pierre, Variable density sampling with continuous trajectories, SIAM J. Imaging Sci. 7 (4) (2014) 1962–1992.
[17]
Aggarwal Hemant Kumar, Jacob Mathews, J-MoDL: Joint model-based deep learning for optimized sampling and reconstruction, IEEE J. Sel. Top. Sign. Proces. 14 (6) (2020) 1151–1162.
[18]
Wang Guanhua, Luo Tianrui, Nielsen Jon-Fredrik, Noll Douglas C., Fessler Jeffrey A., B-spline parameterized joint optimization of reconstruction and k-space trajectories (bjork) for accelerated 2d MRI, IEEE Trans. Med. Imaging 41 (9) (2022) 2318–2330.
[19]
Wang Jiechao, Yang Qinqin, Yang Qizhi, Xu Lina, Cai Congbo, Cai Shuhui, Joint optimization of cartesian sampling patterns and reconstruction for single-contrast and multi-contrast fast magnetic resonance imaging, Comput. Methods Programs Biomed. 226 (2022).
[20]
Ronneberger Olaf, Fischer Philipp, Brox Thomas, U-net: Convolutional networks for biomedical image segmentation, in: Medical Image Computing and Computer-Assisted Intervention, Springer, 2015, pp. 234–241.
[21]
Zhao Lin, Chen Xiao, Chen Eric Z., Liu Yikang, Shen Dinggang, Chen Terrence, Sun Shanhui, JoJoNet: Joint-contrast and joint-sampling-and-reconstruction network for multi-contrast MRI, 2022, arXiv preprint arXiv:2210.12548.
[22]
Xuan Kai, Sun Shanhui, Xue Zhong, Wang Qian, Liao Shu, Learning MRI k-space subsampling pattern using progressive weight pruning, in: Medical Image Computing and Computer Assisted Intervention, Springer, 2020, pp. 178–187.
[23]
Iris A.M. Huijben, Bastiaan S. Veeling, Ruud J.G. van Sloun, Deep probabilistic subsampling for task-adaptive compressed sensing, in: International Conference on Learning Representations, 2020.
[24]
Zizhao Zhang, Adriana Romero, Matthew J. Muckley, Pascal Vincent, Lin Yang, Michal Drozdzal, Reducing uncertainty in undersampled MRI reconstruction with active acquisition, in: IEEE Computer Vision and Pattern Recognition, 2019, pp. 2049–2058.
[25]
Van Gorp Hans, Huijben Iris, Veeling Bastiaan S., Pezzotti Nicola, Van Sloun Ruud J.G., Active deep probabilistic subsampling, in: International Conference on Machine Learning, PMLR, 2021, pp. 10509–10518.
[26]
Yang Yan, Sun Jian, Li Huibin, Xu Zongben, ADMM-CSNet: A deep learning approach for image compressive sensing, IEEE Trans. Pattern Anal. Mach. Intell. 42 (3) (2018) 521–538.
[27]
Aggarwal Hemant K., Mani Merry P., Jacob Mathews, MoDL: Model-based deep learning architecture for inverse problems, IEEE Trans. Med. Imaging 38 (2) (2018) 394–405.
[28]
Li Zheng, Ying Shihui, Wang Jun, He Hongjian, Shi Jun, Reconstruction of quantitative susceptibility mapping from total field maps with local field maps guided UU-net, IEEE J. Biomed. Health Inf. 27 (4) (2023) 2047–2058.
[29]
Zhang Shengjie, Ren Bohan, Yu Ziqi, Yang Haibo, Han Xiaoyang, Chen Xiang, Zhou Yuan, Shen Dinggang, Zhang Xiao-Yong, TW-Net: Transformer weighted network for neonatal brain MRI segmentation, IEEE J. Biomed. Health Inf. 27 (2) (2022) 1072–1083.
[30]
Lee Dongwook, Yoo Jaejun, Tak Sungho, Ye Jong Chul, Deep residual learning for accelerated MRI using magnitude and phase networks, IEEE Trans. Biomed. Eng. 65 (9) (2018) 1985–1995.
[31]
Wang Shanshan, Su Zhenghang, Ying Leslie, Peng Xi, Zhu Shun, Liang Feng, Feng Dagan, Liang Dong, Accelerating magnetic resonance imaging via deep learning, in: IEEE International Symposium on Biomedical Imaging, IEEE, 2016, pp. 514–517.
[32]
Schlemper Jo, Caballero Jose, Hajnal Joseph V., Price Anthony N., Rueckert Daniel, A deep cascade of convolutional neural networks for dynamic MR image reconstruction, IEEE Trans. Med. Imaging 37 (2) (2018) 491–503.
[33]
Quan Tran Minh, Nguyen-Duc Thanh, Jeong Won-Ki, Compressed sensing MRI reconstruction using a generative adversarial network with a cyclic loss, IEEE Trans. Med. Imaging 37 (6) (2018) 1488–1497.
[34]
Yang Guang, Yu Simiao, Dong Hao, Slabaugh Greg, Dragotti Pier Luigi, Ye Xujiong, Liu Fangde, Arridge Simon, Keegan Jennifer, Guo Yike, et al., DAGAN: Deep de-aliasing generative adversarial networks for fast compressed sensing MRI reconstruction, IEEE Trans. Med. Imaging 37 (6) (2018) 1310–1321.
[35]
Lei Ke, Mardani Morteza, Pauly John M., Vasanawala Shreyas S., Wasserstein GANs for MR imaging: from paired to unpaired training, IEEE Trans. Med. Imaging 40 (1) (2020) 105–115.
[36]
Knoll Florian, Zbontar Jure, Sriram Anuroop, Muckley Matthew J., Bruno Mary, Defazio Aaron, Parente Marc, Geras Krzysztof J., Katsnelson Joe, Chandarana Hersh, et al., fastMRI: A publicly available raw k-space and DICOM dataset of knee images for accelerated MR image reconstruction using machine learning, Radiol. Artif. Intell. 2 (1) (2020).
[37]
Hyun Chang Min, Kim Hwa Pyung, Lee Sung Min, Lee Sungchul, Seo Jin Keun, Deep learning for undersampled MRI reconstruction, Phys. Med. Biol. 63 (13) (2018).
[38]
Han Yoseo, Sunwoo Leonard, Ye Jong Chul, k-Space deep learning for accelerated MRI, IEEE Trans. Med. Imaging 39 (2) (2019) 377–386.
[39]
Sriram Anuroop, Zbontar Jure, Murrell Tullie, Defazio Aaron, Zitnick C. Lawrence, Yakubova Nafissa, Knoll Florian, Johnson Patricia, End-to-end variational networks for accelerated MRI reconstruction, in: Medical Image Computing and Computer Assisted Intervention, Springer, 2020, pp. 64–73.
[40]
Tianwei Yin, Zihui Wu, He Sun, Adrian V. Dalca, Yisong Yue, Katherine L. Bouman, End-to-end sequential sampling and reconstruction for mr imaging, in: Proceedings of the Machine Learning for Health Conference, 2021.
[41]
Dosovitskiy Alexey, Beyer Lucas, Kolesnikov Alexander, Weissenborn Dirk, Zhai Xiaohua, Unterthiner Thomas, Dehghani Mostafa, Minderer Matthias, Heigold Georg, Gelly Sylvain, et al., An image is worth 16x16 words: Transformers for image recognition at scale, 2020, arXiv preprint arXiv:2010.11929.
[42]
Vaswani Ashish, Shazeer Noam, Parmar Niki, Uszkoreit Jakob, Jones Llion, Gomez Aidan N., Kaiser Łukasz, Polosukhin Illia, Attention is all you need, Adv. Neural Inf. Process. Syst. 30 (2017).
[43]
Lyu Jun, Sui Bin, Wang Chengyan, Tian Yapeng, Dou Qi, Qin Jing, DuDoCAF: Dual-domain cross-attention fusion with recurrent transformer for fast multi-contrast MR imaging, in: Medical Image Computing and Computer Assisted Intervention, Springer, 2022, pp. 474–484.
[44]
Korkmaz Yilmaz, Dar Salman U.H., Yurt Mahmut, Özbey Muzaffer, Cukur Tolga, Unsupervised MRI reconstruction via zero-shot learned adversarial transformers, IEEE Trans. Med. Imaging 41 (7) (2022) 1747–1763.
[45]
Bo Zhou, Neel Dey, Jo Schlemper, Seyed Sadegh Mohseni Salehi, Chi Liu, James S. Duncan, Michal Sofka, DSFormer: a dual-domain self-supervised transformer for accelerated multi-contrast MRI reconstruction, in: IEEE Winter Conference on Applications of Computer Vision, 2023, pp. 4966–4975.
[46]
Guo Pengfei, Mei Yiqun, Zhou Jinyuan, Jiang Shanshan, Patel Vishal M., ReconFormer: Accelerated MRI reconstruction using recurrent transformer, 2022, arXiv preprint arXiv:2201.09376.
[47]
Huang Qinghua, Wang Dan, Lu Zhenkun, Zhou Shichong, Li Jiawei, Liu Longzhong, Chang Cai, A novel image-to-knowledge inference approach for automatically diagnosing tumors, Expert Syst. Appl. 229 (2023).
[48]
Li Yonghao, Zhou Tao, He Kelei, Zhou Yi, Shen Dinggang, Multi-scale transformer network with edge-aware pre-training for cross-modality MR image synthesis, IEEE Trans. Med. Imaging (2023).
[49]
Liu Weihua, Liu Xiabi, Luo Xiongbiao, Wang Murong, Han Guanghui, Zhao Xinming, Zhu Zheng, A pyramid input augmented multi-scale CNN for GGO detection in 3D lung CT images, Pattern Recognit. 136 (2023).
[50]
Huang Qinghua, Tian Haozhe, Jia Lizhi, Li Ziming, Zhou Zishu, A review of deep learning segmentation methods for carotid artery ultrasound images, Neurocomputing (2023).
[51]
Luo Yaozhong, Huang Qinghua, Liu Longzhong, Classification of tumor in one single ultrasound image via a novel multi-view learning strategy, Pattern Recognit. (2023).
[52]
Hado Van Hasselt, Arthur Guez, David Silver, Deep reinforcement learning with double q-learning, in: Association for the Advance of Artificial Intelligence, Vol. 30, No. 1, 2016.
[53]
Liu Yiming, Pang Yanwei, Jin Ruiqi, Wang Zhenchang, Active phase-encode selection for slice-specific fast MR scanning using a transformer-based deep reinforcement learning framework, 2022, arXiv preprint arXiv:2203.05756.
[54]
Xiong Ruibin, Yang Yunchang, He Di, Zheng Kai, Zheng Shuxin, Xing Chen, Zhang Huishuai, Lan Yanyan, Wang Liwei, Liu Tieyan, On layer normalization in the transformer architecture, in: International Conference on Machine Learning, PMLR, 2020, pp. 10524–10533.
[55]
Wang Zhou, Bovik Alan C., Sheikh Hamid R., Simoncelli Eero P., Image quality assessment: from error visibility to structural similarity, IEEE Trans. Image Process. 13 (4) (2004) 600–612.
[56]
Zbontar Jure, Knoll Florian, Sriram Anuroop, Murrell Tullie, Huang Zhengnan, Muckley Matthew J., Defazio Aaron, Stern Ruben, Johnson Patricia, Bruno Mary, et al., fastMRI: An open dataset and benchmarks for accelerated MRI, 2018, arXiv preprint arXiv:1811.08839.
[57]
Tygert Mark, Zbontar Jure, Simulating single-coil MRI from the responses of multiple coils, Commun. Appl. Math. Comput. Sci. 15 (2) (2020) 115–127.
[58]
Kingma Diederik P., Ba Jimmy, Adam: A method for stochastic optimization, 2014, arXiv preprint arXiv:1412.6980.

Index Terms

  1. Dual states based reinforcement learning for fast MR scan and image reconstruction
          Index terms have been assigned to the content through auto-classification.

          Recommendations

          Comments

          Please enable JavaScript to view thecomments powered by Disqus.

          Information & Contributors

          Information

          Published In

          cover image Neurocomputing
          Neurocomputing  Volume 568, Issue C
          Feb 2024
          249 pages

          Publisher

          Elsevier Science Publishers B. V.

          Netherlands

          Publication History

          Published: 01 February 2024

          Author Tags

          1. Fast scan
          2. Phase encoding
          3. Magnetic resonance imaging
          4. Reinforcement learning
          5. Image reconstruction

          Qualifiers

          • Research-article

          Contributors

          Other Metrics

          Bibliometrics & Citations

          Bibliometrics

          Article Metrics

          • 0
            Total Citations
          • 0
            Total Downloads
          • Downloads (Last 12 months)0
          • Downloads (Last 6 weeks)0
          Reflects downloads up to 23 Jan 2025

          Other Metrics

          Citations

          View Options

          View options

          Media

          Figures

          Other

          Tables

          Share

          Share

          Share this Publication link

          Share on social media